MINE Analysis

Input, Format, View	Analyze	Extras	Site Management	Q8r1-96 Genome Database
Submit	Blast	All Scripts	Admin	HOME
Edit	G+C & More	Link MINE	"MINE"	List of Genes
Translate & Convert	Remote Tools	Manual	HOME	Index
View Data Log	Search & Display	Comments	MINE	Related Links
Statistics	Search Engine	Web Log	FAQ	Contact Us

Links to additional web-based Analyses of single sequences. Also check the Link MINE menu for lists of databases websites, and tools dedicated to the data-mining of complete genomes and proteomes

Batch Analyses of All MINE Entries

Each option selected will be performed on EVERY entry in the database (EVERY .db file). Each type of analysis defines a new field in each database entry (e.g. GC for G+C content). If a field already exists it will be over-written each time an analysis is performed.

G+C adds the percentage of G+C for the entire sequence, as does G+A for the G+A content. Sequence length is the length of the entire sequence. The "add links to all .db files" option searches for all other files in the database with similar names and adds hyperlinks to each of them into the main entry. If blast reports are detected among these files (all files ending in "blast.html"), this option also writes the top two matches into the main entry file.

The two benefits of this script are 1) that this extra information becomes viewable in individual sequence entry files (see Database Log), and 2) is therefore searchable using the MINE Search Engine. Using the Search Engine one can generate reports for example of the gc content, sequence length, and top blast matches for each sequence which can be saved for viewing in the Database Log or for export, for example as an Excel Workbook.

G+C content (as a percentage of total nucleotides in a sequence)
G+A content (as a percentage of total nucleotides in a sequence)
Sequence length
add links to all .db files